Preprint Article Version 1 Preserved in Portico This version is not peer-reviewed

Comparison of Two Bacterial Characterization Techniques for the Genomic Analysis of River Microbiome

Roberto Bonnelly
,
Victor V. Calderon
,
Irene Ortiz
,
Argenys Ovando
ORCID logo ,
Confesora Pinales
,
Willy Lara
,
Santo Emilio Mateo-Perez
,
Oscar Victor Cardenas-Alegría
,
Rommel Thiago Jucá Ramos
,
Yaset Rodríguez-Rodríguez
ORCID logo ,
Luis Orlando Maroto Martín
*,‡ ORCID logo ,
Edian Franklin Franco De Los Santos
*,‡ ORCID logo
‡
These authors contributed equally to the work.
Version 1 : Received: 11 July 2023 / Approved: 11 July 2023 / Online: 11 July 2023 (09:30:41 CEST)

A peer-reviewed article of this Preprint also exists.

Bonnelly, R.; Calderon, V.V.; Ortiz, I.; Ovando, A.; Pinales, C.; Lara, W.; Mateo-Perez, S.E.; Cardenas-Alegria, O.; Ramos, R.T.; Rodríguez-Rodríguez, Y.; Martín, L.O.M.; Franco, E.F. Comparison of Two Bacterial Characterization Techniques for the Genomic Analysis of River Microbiomes. Appl. Microbiol. 2023, 3, 1037-1045. Bonnelly, R.; Calderon, V.V.; Ortiz, I.; Ovando, A.; Pinales, C.; Lara, W.; Mateo-Perez, S.E.; Cardenas-Alegria, O.; Ramos, R.T.; Rodríguez-Rodríguez, Y.; Martín, L.O.M.; Franco, E.F. Comparison of Two Bacterial Characterization Techniques for the Genomic Analysis of River Microbiomes. Appl. Microbiol. 2023, 3, 1037-1045.

Abstract

We compared the performance of matrix-assisted laser desorption/ionization followed by a time of flight (MALDI-TOF) mass spectrometry and genomic DNA extraction followed by sequencing, assembly, and alignment for phylogenetic assessment (Genomics method). We collected the samples from four contaminated rivers in the Dominican Republic and analyzed MALDI-TOF efficacy and accuracy for identifying bacteria in the samples. We evaluated the results for both methods (MALDI-TOF and Genomics) and reported a similarity percentage between each method's results. The MALDI-TOF method had a 72.41\% of coincidence with the Genomics method. This could have been sequence contamination found in the Genomics method. When it was later filtered, the result's coincidence rate went up to 90\%.

Keywords

MALDI-TOF; enviromental; Rivers; Genomics method; Dominican Republic

Subject

Biology and Life Sciences, Life Sciences

Copyright: This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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